Variant report
| Variant | rs1018420 |
|---|---|
| Chromosome Location | chr6:38836878-38836879 |
| allele | A/C |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr6:38832144..38833987-chr6:38835285..38837516,2 | K562 | blood: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:25)
| rs_ID | r2[population] |
|---|---|
| rs1033524 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs12191936 | 0.89[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs12196388 | 1.00[CHB][hapmap];1.00[ASN][1000 genomes] |
| rs12199272 | 1.00[ASN][1000 genomes] |
| rs12208880 | 0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes] |
| rs12209872 | 1.00[CHB][hapmap];1.00[ASN][1000 genomes] |
| rs12210346 | 1.00[ASN][1000 genomes] |
| rs13196250 | 0.95[CEU][hapmap];1.00[CHB][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs13208143 | 1.00[CHB][hapmap] |
| rs13213448 | 1.00[CHB][hapmap] |
| rs13219077 | 1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[ASN][1000 genomes] |
| rs1625177 | 1.00[CHB][hapmap] |
| rs1631117 | 1.00[CHD][hapmap] |
| rs1781723 | 1.00[CHB][hapmap] |
| rs1937777 | 1.00[CHB][hapmap];1.00[CHD][hapmap] |
| rs2395710 | 1.00[CHB][hapmap] |
| rs506672 | 1.00[CHB][hapmap] |
| rs67438253 | 1.00[ASN][1000 genomes] |
| rs6923304 | 1.00[CHB][hapmap];1.00[ASN][1000 genomes] |
| rs6928323 | 1.00[CHB][hapmap];1.00[ASN][1000 genomes] |
| rs6930268 | 1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[ASN][1000 genomes] |
| rs7742625 | 1.00[CHB][hapmap];1.00[CHD][hapmap] |
| rs926674 | 1.00[CHB][hapmap] |
| rs9296260 | 1.00[CHB][hapmap];1.00[CHD][hapmap] |
| rs9470961 | 1.00[CHB][hapmap] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv885817 | chr6:38036420-39019503 | Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 26 gene(s) | inside rSNPs | diseases |
| 2 | nsv830643 | chr6:38726675-38905589 | Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 3 | nsv1028088 | chr6:38821047-39163549 | Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 10 gene(s) | inside rSNPs | diseases |
| 4 | nsv538205 | chr6:38821047-39163549 | Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 10 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs1018420 | ANKS1A | cis | parietal | SCAN |
| rs1018420 | KIAA0240 | cis | parietal | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
